Fig. 1: Harmonized cellular map of the human endometrium.

a, Schematic illustration of the human uterus and cellular composition of the endometrium as it undergoes morphological changes across the menstrual cycle. b, List of datasets analyzed and contribution of the number of donors, cells/nuclei, endometrial histology and endometriosis status of all samples profiled per dataset. c, UMAP projections of the HECA scRNA-seq data from a total of 63 individuals and 313,527 cells colored by cell state. d, UMAP projections of snRNA-seq data from a total of 63 individuals and 312,246 nuclei colored by cell state. Dot colour corresponds to cell states described in c. e, Bar plot showing the contribution of each of the scRNA-seq datasets to the main cellular lineages (endothelial, epithelial, immune and mesenchymal lineages) as shown in c. f, Bar plot showing the cellular composition of a total of 47 endometrial biopsies from the menstrual (n = 2), proliferative (n = 25), early secretory (n = 6), early/mid secretory (n = 7), mid secretory (n = 6) and late secretory (n = 1) phases of the menstrual cycle for the scRNA-seq data presented in c. Biopsies from donors on hormones (n = 14) and samples assigned as secretory phase without available subcategorisation into early/mid/late secretory (n = 2) are shown in Extended Data Fig. 1d. Bar colour corresponds to cell states described in c. ^aFive donors are shared between Mareckova scRNA-seq and snRNA-seq datasets. ePV, endometrial PV cells; mPV, myometrial PV cells; prolif., proliferative; secret., secretory.